Target folder: /home/hflavio/Google-drive/workshops_and_presentations/2024-09_OTN/workshop_materials/dataset/2018
Timestamp: 2024-07-24 12:51:11.231463
Number of target tags: 100
Number of listed receivers: 11 (of which 0 had no detections)
Data time range: 2018-03-16 12:14:24 to 2018-08-05 08:11:01 (Europe/Belfast).
Percentage of post-release valid detections: 9.94%
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Arrays with the same background belong to the same section. Release sites are marked with “R.S.”. Arrays connected with an arrow indicate that the animals can only pass in one direction.
| Station.name | Latitude | Longitude | Array | Section | Standard.name | x.29902 | y.29902 |
|---|---|---|---|---|---|---|---|
| Bellisle | 55.1095 | -6.4454 | A1 | River | St.1 | 299262 | 430242 |
| Layde | 55.2014 | -6.5243 | A2 | River | St.2 | 294010 | 440363 |
| Sewage works | 55.2104 | -6.5317 | A3 | River | St.3 | 293518 | 441355 |
| Golf Course | 55.2196 | -6.5319 | A4 | River | St.4 | 293484 | 442379 |
| Runkerry bay 1 | 55.2216 | -6.5416 | A5 | Sea | St.5 | 292862 | 442588 |
| Runkerry bay 2 | 55.2243 | -6.5418 | A5 | Sea | St.6 | 292843 | 442889 |
| Runkerry bay 3 | 55.2263 | -6.5389 | A5 | Sea | St.7 | 293023 | 443115 |
| Runkerry bay 4 | 55.2280 | -6.5361 | A5 | Sea | St.8 | 293197 | 443308 |
| Outer bay 1 | 55.2234 | -6.5556 | A6 | Sea | St.9 | 291967 | 442770 |
| Outer bay 2 | 55.2261 | -6.5574 | A6 | Sea | St.10 | 291846 | 443068 |
| Outer bay 3 | 55.2285 | -6.5553 | A6 | Sea | St.11 | 291974 | 443338 |
| Receiver | Array | Station.name | Standard.name | Start | Stop |
|---|---|---|---|---|---|
| 102881 | A5 | Runkerry bay 4 | St.8 | 2018-01-01 00:00:01 | 2019-01-01 00:00:01 |
| 102887 | A5 | Runkerry bay 2 | St.6 | 2018-01-01 00:00:01 | 2019-01-01 00:00:01 |
| 107086 | A5 | Runkerry bay 3 | St.7 | 2018-01-01 00:00:01 | 2019-01-01 00:00:01 |
| 107087 | A1 | Bellisle | St.1 | 2018-01-01 00:00:01 | 2019-01-01 00:00:01 |
| 124015 | A5 | Runkerry bay 1 | St.5 | 2018-01-01 00:00:01 | 2019-01-01 00:00:01 |
| 124258 | A2 | Layde | St.2 | 2018-01-01 00:00:01 | 2019-01-01 00:00:01 |
| 133182 | A3 | Sewage works | St.3 | 2018-01-01 00:00:01 | 2019-01-01 00:00:01 |
| 133184 | A4 | Golf Course | St.4 | 2018-01-01 00:00:01 | 2019-01-01 00:00:01 |
| 546169 | A6 | Outer bay 2 | St.10 | 2018-01-01 00:00:01 | 2019-01-01 00:00:01 |
| 546170 | A6 | Outer bay 1 | St.9 | 2018-01-01 00:00:01 | 2019-01-01 00:00:01 |
| 546646 | A6 | Outer bay 3 | St.11 | 2018-01-01 00:00:01 | 2019-01-01 00:00:01 |
| Station.name | Latitude | Longitude | Array | Type | Standard.name | x.29902 | y.29902 | n.Wild | n.Hatchery |
|---|---|---|---|---|---|---|---|---|---|
| Cross | 55.10060 | -6.4053 | A1 | Release | Cross | 301843 | 429309 | 25 | 25 |
| Trap | 55.20271 | -6.5231 | A3 | Release | Trap | 294084 | 440510 | 25 | 25 |
overall.CJS object. Auxiliary information can also be found in the matrices and arrays objects.
advEfficiency(results$overall.CJS) to obtain beta-drawn efficiency distributions (replace results with the name of the object where you saved the analysis).
Individuals detected and estimated
| A1 | A2 | A3 | A4 | A5 | A6 | |
|---|---|---|---|---|---|---|
| detected | 22 | 13 | 34 | 30 | 24 | 7 |
| here plus on peers | 13 | 8 | 30 | 24 | 6 | - |
| not here but on peers | 0 | 0 | 1 | 1 | 1 | - |
| known | 22 | 13 | 35 | 31 | 25 | 7 |
| estimated | 22 | 13 | 35 | 31 | 28 | - |
Array efficiency
Note: These values already include any intra-array efficiency estimates that have been requested.
| A1 | A2 | A3 | A4 | A5 | A6 | |
|---|---|---|---|---|---|---|
| efficiency | 100% | 100% | 96.8% | 96% | 85.7% | - |
Warning: Long group names detected. To improve graphic rendering, consider keeping group names under six characters.
Warning: Tag R64K-4332 (1/50) was detected 70831 times at stations less than 1.5 km apart in array 'A5' (St.6, St.7, St.8), over 43.19 days and then disappeared. Could it be inactive?
Warning: Tag R64K-4333 (2/50) was detected 74836 times at stations less than 1.5 km apart in array 'A2' (St.2), over 93.19 days and then disappeared. Could it be inactive?
Warning: Tag R64K-4347 (7/50) jumped through 2 arrays in valid events 2 -> 3 (A2 -> A5).
Warning: Tag R64K-4347 (7/50) was detected 10 times at stations less than 1.5 km apart in array 'A5' (St.7, St.8), over 34.32 days and then disappeared. Could it be inactive?
Warning: Tag R64K-4352 (10/50) was detected 633 times at stations less than 1.5 km apart in array 'A2' (St.2), over 6.22 days and then disappeared. Could it be inactive?
Warning: Tag R64K-4380 (21/50) had an average speed of 1.32 m/s from valid event 5 to 6 (A5 -> A6).
Warning: Tag R64K-4396 (32/50) was detected in an array that is not after its release site! Opening relevant data for inspection.
Expected first array: A3
Warning: Tag R64K-4404 (35/50) was detected 5076 times at stations less than 1.5 km apart in array 'A4' (St.4), over 5.18 days and then disappeared. Could it be inactive?
Warning: Tag R64K-4415 (41/50) had an average speed of 0.75 m/s from valid event 6 to 7 (A6 -> A5).
R64K-4347 Tough one. To be conservative, consider it survived.
R64K-4352 Does not spend much time on array, but keeps pinging repeatedly. Removing trailing events.
R64K-4380 Extremely fast speed between A5 and A6. Does not impact fate, so I will leave it all in.
R64K-4396 Only detected upstream of release, at impossible site. Rendered invalid.
section.overview object.
| Total | Disap..in.River | Migrated.to.Sea | Disap..in.Sea | Succeeded | |
|---|---|---|---|---|---|
| Hatchery | 50 | 35 | 15 | 3 | 12 |
| Wild | 50 | 34 | 16 | 3 | 13 |
status.df object (‘Very.last.array’ column).
Zoom in or open the figure in a new tab to clearly read the text within each circle.
overall.CJS object, and the data used in the tables is stored in the group.overview object. You can find detailed progressions per release site in the release.overview object.
Group: Wild
| Release | A1 | A2 | A3 | A4 | A5 | A6 | |
|---|---|---|---|---|---|---|---|
| detected | 50 | 12 | 8 | 17 | 15 | 12 | 2 |
| here plus on peers | - | 8 | 6 | 15 | 12 | 1 | - |
| not here but on peers | - | 0 | 0 | 1 | 1 | 1 | - |
| known | 50 | 12 | 8 | 18 | 16 | 13 | 2 |
| estimated | - | 12 | 8 | 18 | 16 | 14 | - |
| difference | - | 0 | 0 | 0 | 0 | 1 | - |
Group: Hatchery
| Release | A1 | A2 | A3 | A4 | A5 | A6 | |
|---|---|---|---|---|---|---|---|
| detected | 50 | 10 | 5 | 17 | 15 | 12 | 5 |
| here plus on peers | - | 5 | 2 | 15 | 12 | 5 | - |
| not here but on peers | - | 0 | 0 | 0 | 0 | 0 | - |
| known | 50 | 10 | 5 | 17 | 15 | 12 | 5 |
| estimated | - | 10 | 5 | 18 | 16 | 14 | - |
| difference | - | 0 | 0 | 1 | 1 | 2 | - |
plotTimes() function.
times object.
options(actel.circular.scale = "linear") before running your analyses.
status.df object.
detections.y.axis argument.
section.order argument.
plotDetections() function.
plotMoves() function.
detections and movements objects (and respective valid counterparts).
Actel R package report.
Version: 1.3.0.9007
Target folder: /home/hflavio/Google-drive/workshops_and_presentations/2024-09_OTN/workshop_materials/dataset/2018
Timestamp: 2024-07-24 12:51:11.231463
Function: migration()
M: 'report' option has been activated.
M: Importing data. This process may take a while.
M: No Code.space column was found in the biometrics. Assigning code spaces based on detections.
Warning: Long group names detected. To improve graphic rendering, consider keeping group names under six characters.
M: Number of target tags: 100.
M: Matching detections with deployment periods.
M: Number of ALS: 11 (of which 0 had no detections)
M: Data time range: 2018-03-16 12:14:24 to 2018-08-05 08:11:01 (Europe/Belfast).
M: File 'distances.csv' found, activating speed calculations.
M: Data successfully imported!
M: Creating movement records for the valid tags.
M: Checking movement events quality.
Warning: Tag R64K-4332 (1/50) was detected 70831 times at stations less than 1.5 km apart in array 'A5' (St.6, St.7, St.8), over 43.19 days and then disappeared. Could it be inactive?
M: 26 movement event(s) from tag R64K-4332 were rendered invalid per user command.
Warning: Tag R64K-4333 (2/50) was detected 74836 times at stations less than 1.5 km apart in array 'A2' (St.2), over 93.19 days and then disappeared. Could it be inactive?
M: 122 movement event(s) from tag R64K-4333 were rendered invalid per user command.
Warning: Tag R64K-4347 (7/50) jumped through 2 arrays in valid events 2 -> 3 (A2 -> A5).
Warning: Tag R64K-4347 (7/50) was detected 10 times at stations less than 1.5 km apart in array 'A5' (St.7, St.8), over 34.32 days and then disappeared. Could it be inactive?
M: Movement event(s) 4, 5, 6, 7, 8, 9, 10, 11, 12 from tag R64K-4347 were rendered invalid per user command.
Warning: Tag R64K-4352 (10/50) was detected 633 times at stations less than 1.5 km apart in array 'A2' (St.2), over 6.22 days and then disappeared. Could it be inactive?
M: Movement event(s) 3, 4, 5, 6, 7, 8, 9, 10, 11 from tag R64K-4352 were rendered invalid per user command.
Warning: Tag R64K-4380 (21/50) had an average speed of 1.32 m/s from valid event 5 to 6 (A5 -> A6).
Warning: Tag R64K-4396 (32/50) was detected in an array that is not after its release site! Opening relevant data for inspection.
Expected first array: A3
M: ALL movement events from tag R64K-4396 were rendered invalid per user command.
Warning: Tag R64K-4404 (35/50) was detected 5076 times at stations less than 1.5 km apart in array 'A4' (St.4), over 5.18 days and then disappeared. Could it be inactive?
M: Movement event(s) 3, 4 from tag R64K-4404 were rendered invalid per user command.
Warning: Tag R64K-4415 (41/50) had an average speed of 0.75 m/s from valid event 6 to 7 (A6 -> A5).
M: Compiling and checking section movements for the valid tags.
M: Filtering valid array movements.
M: Filtering valid section movements.
M: Compiling migration timetable.
M: Compiling summary information tables.
M: Calculating array efficiency.
M: Saving results as 'actel_migration_results.RData'.
M: Producing the report.
M: Drawing individual detection graphics.
M: Analysis completed!
-------------------
User comments:
-------------------
R64K-4347: Tough one. To be conservative, consider it survived.
R64K-4352: Does not spend much time on array, but keeps pinging repeatedly. Removing trailing events.
R64K-4380: Extremely fast speed between A5 and A6. Does not impact fate, so I will leave it all in.
R64K-4396: Only detected upstream of release, at impossible site. Rendered invalid.
-------------------
User interventions:
-------------------
y # save strays?
y # invalidate/expand moves in R64K-4332?
10:35
y # confirm?
n # invalidate more?
y # invalidate/expand moves in R64K-4333?
3:124
y # confirm?
n # invalidate more?
comment # on R64K-4347
Tough one. To be conservative, consider it survived.
y # invalidate/expand moves in R64K-4347?
4:12
y # confirm?
n # invalidate more?
comment # on R64K-4352
Does not spend much time on array, but keeps pinging repeatedly. Removing trailing events.
y # invalidate/expand moves in R64K-4352?
3:11
y # confirm?
n # invalidate more?
comment # on R64K-4380
Extremely fast speed between A5 and A6. Does not impact fate, so I will leave it all in.
n # invalidate/expand moves in R64K-4380?
comment # on R64K-4396
Only detected upstream of release, at impossible site. Rendered invalid.
y # invalidate/expand moves in R64K-4396?
1:3
y # confirm?
y # invalidate/expand moves in R64K-4404?
3, 4
y # confirm?
n # invalidate more?
n # invalidate/expand moves in R64K-4415?
y # save results?
-------------------
Migration function call:
-------------------
migration(tz = 'Europe/Belfast', section.order = NULL, datapack = NULL, success.arrays = c('A5', 'A6'), max.interval = 60, min.total.detections = 2, min.per.event = c(1, 1), start.time = NULL, stop.time = NULL, speed.method = 'last to first', speed.warning = 0.7, speed.error = 0.7, jump.warning = 2, jump.error = 3, inactive.warning = 3, inactive.error = 5, exclude.tags = NULL, override = NULL, report = TRUE, auto.open = TRUE, discard.orphans = FALSE, discard.first = NULL, save.detections = FALSE, if.last.skip.section = TRUE, replicates = NULL, disregard.parallels = TRUE, GUI = 'needed', save.tables.locally = FALSE, print.releases = TRUE, detections.y.axis = 'auto')
-------------------